* [gentoo-commits] proj/sci:master commit in: sci-biology/Fastaq/
@ 2021-02-13 10:42 Andrew Ammerlaan
0 siblings, 0 replies; 8+ messages in thread
From: Andrew Ammerlaan @ 2021-02-13 10:42 UTC (permalink / raw
To: gentoo-commits
commit: de0b0d0f14a82ff95dbb339a60f5a532ea2014fa
Author: Andrew Ammerlaan <andrewammerlaan <AT> riseup <DOT> net>
AuthorDate: Sat Feb 13 10:41:10 2021 +0000
Commit: Andrew Ammerlaan <andrewammerlaan <AT> riseup <DOT> net>
CommitDate: Sat Feb 13 10:41:10 2021 +0000
URL: https://gitweb.gentoo.org/proj/sci.git/commit/?id=de0b0d0f
sci-biology/Fastaq: add version 3.17.0, add tests
Package-Manager: Portage-3.0.14, Repoman-3.0.2
Signed-off-by: Andrew Ammerlaan <andrewammerlaan <AT> riseup.net>
.../Fastaq/{Fastaq-9999.ebuild => Fastaq-3.17.0.ebuild} | 14 ++++++--------
1 file changed, 6 insertions(+), 8 deletions(-)
diff --git a/sci-biology/Fastaq/Fastaq-9999.ebuild b/sci-biology/Fastaq/Fastaq-3.17.0.ebuild
similarity index 57%
rename from sci-biology/Fastaq/Fastaq-9999.ebuild
rename to sci-biology/Fastaq/Fastaq-3.17.0.ebuild
index 5f932f511..28ff526f6 100644
--- a/sci-biology/Fastaq/Fastaq-9999.ebuild
+++ b/sci-biology/Fastaq/Fastaq-3.17.0.ebuild
@@ -1,20 +1,18 @@
# Copyright 1999-2021 Gentoo Authors
# Distributed under the terms of the GNU General Public License v2
-EAPI=6
+EAPI=7
-PYTHON_COMPAT=( python3_7 )
+PYTHON_COMPAT=( python3_{7,8,9} )
-inherit distutils-r1 git-r3
+inherit distutils-r1
DESCRIPTION="Manipulate FASTA/Q, GFF3, EMBL, GBK files with API for developers"
HOMEPAGE="https://github.com/sanger-pathogens/Fastaq"
-EGIT_REPO_URI="https://github.com/sanger-pathogens/Fastaq.git"
+SRC_URI="https://github.com/sanger-pathogens/Fastaq/archive/v${PV}.tar.gz -> ${P}.tar.gz"
LICENSE="GPL-3"
SLOT="0"
-KEYWORDS=""
-IUSE=""
+KEYWORDS="~amd64"
-DEPEND=""
-RDEPEND="${DEPEND}"
+distutils_enable_tests nose
^ permalink raw reply related [flat|nested] 8+ messages in thread* [gentoo-commits] proj/sci:master commit in: sci-biology/Fastaq/
@ 2023-01-14 11:51 Horea Christian
0 siblings, 0 replies; 8+ messages in thread
From: Horea Christian @ 2023-01-14 11:51 UTC (permalink / raw
To: gentoo-commits
commit: cb58accf5ba16cf9c6847740da88a44b0b27eaaa
Author: Horea Christian <chr <AT> chymera <DOT> eu>
AuthorDate: Sat Jan 14 11:50:52 2023 +0000
Commit: Horea Christian <horea.christ <AT> gmail <DOT> com>
CommitDate: Sat Jan 14 11:50:52 2023 +0000
URL: https://gitweb.gentoo.org/proj/sci.git/commit/?id=cb58accf
sci-biology/Fastaq: using PEP517
Signed-off-by: Horea Christian <chr <AT> chymera.eu>
sci-biology/Fastaq/Fastaq-3.17.0.ebuild | 1 +
1 file changed, 1 insertion(+)
diff --git a/sci-biology/Fastaq/Fastaq-3.17.0.ebuild b/sci-biology/Fastaq/Fastaq-3.17.0.ebuild
index 4edf7cb45..443fb3342 100644
--- a/sci-biology/Fastaq/Fastaq-3.17.0.ebuild
+++ b/sci-biology/Fastaq/Fastaq-3.17.0.ebuild
@@ -4,6 +4,7 @@
EAPI=8
PYTHON_COMPAT=( python3_{10..11} )
+DISTUTILS_USE_PEP517=setuptools
inherit distutils-r1
^ permalink raw reply related [flat|nested] 8+ messages in thread* [gentoo-commits] proj/sci:master commit in: sci-biology/Fastaq/
@ 2023-01-14 11:51 Horea Christian
0 siblings, 0 replies; 8+ messages in thread
From: Horea Christian @ 2023-01-14 11:51 UTC (permalink / raw
To: gentoo-commits
commit: 172812edacf51e665169bf46e083487be3f7e828
Author: Horea Christian <chr <AT> chymera <DOT> eu>
AuthorDate: Sat Jan 14 11:48:32 2023 +0000
Commit: Horea Christian <horea.christ <AT> gmail <DOT> com>
CommitDate: Sat Jan 14 11:48:32 2023 +0000
URL: https://gitweb.gentoo.org/proj/sci.git/commit/?id=172812ed
sci-biology/Fastaq: using pytest
Signed-off-by: Horea Christian <chr <AT> chymera.eu>
sci-biology/Fastaq/Fastaq-3.17.0.ebuild | 4 +++-
1 file changed, 3 insertions(+), 1 deletion(-)
diff --git a/sci-biology/Fastaq/Fastaq-3.17.0.ebuild b/sci-biology/Fastaq/Fastaq-3.17.0.ebuild
index e62cd5e8f..4edf7cb45 100644
--- a/sci-biology/Fastaq/Fastaq-3.17.0.ebuild
+++ b/sci-biology/Fastaq/Fastaq-3.17.0.ebuild
@@ -15,4 +15,6 @@ LICENSE="GPL-3"
SLOT="0"
KEYWORDS="~amd64"
-distutils_enable_tests nose
+distutils_enable_tests pytest
+# Nominally upstream still uses nose, though it does not encumber us, and tests pass:
+# https://github.com/sanger-pathogens/Fastaq/issues/84
^ permalink raw reply related [flat|nested] 8+ messages in thread
* [gentoo-commits] proj/sci:master commit in: sci-biology/Fastaq/
@ 2023-01-14 11:51 Horea Christian
0 siblings, 0 replies; 8+ messages in thread
From: Horea Christian @ 2023-01-14 11:51 UTC (permalink / raw
To: gentoo-commits
commit: 849f966b89371fd6d3b2428228452643f1469f91
Author: Horea Christian <chr <AT> chymera <DOT> eu>
AuthorDate: Sat Jan 14 11:21:02 2023 +0000
Commit: Horea Christian <horea.christ <AT> gmail <DOT> com>
CommitDate: Sat Jan 14 11:21:10 2023 +0000
URL: https://gitweb.gentoo.org/proj/sci.git/commit/?id=849f966b
sci-biology/Fastaq: update EAPI and PYTHON_COMPAT
Signed-off-by: Horea Christian <chr <AT> chymera.eu>
sci-biology/Fastaq/Fastaq-3.17.0.ebuild | 6 +++---
1 file changed, 3 insertions(+), 3 deletions(-)
diff --git a/sci-biology/Fastaq/Fastaq-3.17.0.ebuild b/sci-biology/Fastaq/Fastaq-3.17.0.ebuild
index 28ff526f6..e62cd5e8f 100644
--- a/sci-biology/Fastaq/Fastaq-3.17.0.ebuild
+++ b/sci-biology/Fastaq/Fastaq-3.17.0.ebuild
@@ -1,9 +1,9 @@
-# Copyright 1999-2021 Gentoo Authors
+# Copyright 1999-2023 Gentoo Authors
# Distributed under the terms of the GNU General Public License v2
-EAPI=7
+EAPI=8
-PYTHON_COMPAT=( python3_{7,8,9} )
+PYTHON_COMPAT=( python3_{10..11} )
inherit distutils-r1
^ permalink raw reply related [flat|nested] 8+ messages in thread* [gentoo-commits] proj/sci:master commit in: sci-biology/Fastaq/
@ 2021-02-12 21:44 Sam James
0 siblings, 0 replies; 8+ messages in thread
From: Sam James @ 2021-02-12 21:44 UTC (permalink / raw
To: gentoo-commits
commit: 0a34d3de9c792858f7c57d6861391c10247d2e8b
Author: Sam James <sam <AT> gentoo <DOT> org>
AuthorDate: Fri Feb 12 21:41:36 2021 +0000
Commit: Sam James <sam <AT> gentoo <DOT> org>
CommitDate: Fri Feb 12 21:41:36 2021 +0000
URL: https://gitweb.gentoo.org/proj/sci.git/commit/?id=0a34d3de
sci-biology/Fastaq: drop obsolete python_targets_*
Package-Manager: Portage-3.0.14, Repoman-3.0.2
Signed-off-by: Sam James <sam <AT> gentoo.org>
sci-biology/Fastaq/Fastaq-9999.ebuild | 4 ++--
1 file changed, 2 insertions(+), 2 deletions(-)
diff --git a/sci-biology/Fastaq/Fastaq-9999.ebuild b/sci-biology/Fastaq/Fastaq-9999.ebuild
index 3a99df177..5f932f511 100644
--- a/sci-biology/Fastaq/Fastaq-9999.ebuild
+++ b/sci-biology/Fastaq/Fastaq-9999.ebuild
@@ -1,9 +1,9 @@
-# Copyright 1999-2018 Gentoo Foundation
+# Copyright 1999-2021 Gentoo Authors
# Distributed under the terms of the GNU General Public License v2
EAPI=6
-PYTHON_COMPAT=( python3_3 python3_4 python3_5 python3_6 python3_7 )
+PYTHON_COMPAT=( python3_7 )
inherit distutils-r1 git-r3
^ permalink raw reply related [flat|nested] 8+ messages in thread
* [gentoo-commits] proj/sci:master commit in: sci-biology/Fastaq/
@ 2018-10-29 14:23 Martin Mokrejs
0 siblings, 0 replies; 8+ messages in thread
From: Martin Mokrejs @ 2018-10-29 14:23 UTC (permalink / raw
To: gentoo-commits
commit: 559bb60db84e5ef4a7b912b2fd7dba135d57b303
Author: Martin Mokrejs <mmokrejs <AT> fold <DOT> natur <DOT> cuni <DOT> cz>
AuthorDate: Mon Oct 29 14:23:35 2018 +0000
Commit: Martin Mokrejs <mmokrejs <AT> fold <DOT> natur <DOT> cuni <DOT> cz>
CommitDate: Mon Oct 29 14:23:35 2018 +0000
URL: https://gitweb.gentoo.org/proj/sci.git/commit/?id=559bb60d
sci-biology/Fastaq: add python 3_{6,7}
Package-Manager: Portage-2.3.51, Repoman-2.3.10
sci-biology/Fastaq/Fastaq-9999.ebuild | 4 ++--
1 file changed, 2 insertions(+), 2 deletions(-)
diff --git a/sci-biology/Fastaq/Fastaq-9999.ebuild b/sci-biology/Fastaq/Fastaq-9999.ebuild
index 3544716c7..3a99df177 100644
--- a/sci-biology/Fastaq/Fastaq-9999.ebuild
+++ b/sci-biology/Fastaq/Fastaq-9999.ebuild
@@ -1,9 +1,9 @@
-# Copyright 1999-2016 Gentoo Foundation
+# Copyright 1999-2018 Gentoo Foundation
# Distributed under the terms of the GNU General Public License v2
EAPI=6
-PYTHON_COMPAT=( python3_3 python3_4 python3_5 )
+PYTHON_COMPAT=( python3_3 python3_4 python3_5 python3_6 python3_7 )
inherit distutils-r1 git-r3
^ permalink raw reply related [flat|nested] 8+ messages in thread* [gentoo-commits] proj/sci:master commit in: sci-biology/Fastaq/
@ 2016-09-23 17:33 Martin Mokrejs
0 siblings, 0 replies; 8+ messages in thread
From: Martin Mokrejs @ 2016-09-23 17:33 UTC (permalink / raw
To: gentoo-commits
commit: 913b84c00d810e7f8f1ca7eb7e4d049ac8903493
Author: Martin Mokrejš <mmokrejs <AT> fold <DOT> natur <DOT> cuni <DOT> cz>
AuthorDate: Fri Sep 23 17:30:57 2016 +0000
Commit: Martin Mokrejs <mmokrejs <AT> fold <DOT> natur <DOT> cuni <DOT> cz>
CommitDate: Fri Sep 23 17:30:57 2016 +0000
URL: https://gitweb.gentoo.org/proj/sci.git/commit/?id=913b84c0
sci-biology/Fastaq: add python_3_5, improve DESCRIPTION line
Package-Manager: portage-2.3.0
sci-biology/Fastaq/Fastaq-9999.ebuild | 4 ++--
1 file changed, 2 insertions(+), 2 deletions(-)
diff --git a/sci-biology/Fastaq/Fastaq-9999.ebuild b/sci-biology/Fastaq/Fastaq-9999.ebuild
index 9acd60e..f931027 100644
--- a/sci-biology/Fastaq/Fastaq-9999.ebuild
+++ b/sci-biology/Fastaq/Fastaq-9999.ebuild
@@ -4,11 +4,11 @@
EAPI=6
-PYTHON_COMPAT=( python3_3 python3_4 )
+PYTHON_COMPAT=( python3_3 python3_4 python3_5 )
inherit distutils-r1 git-r3
-DESCRIPTION="Python3 script to manipulate FASTA/Q files plus API for developers"
+DESCRIPTION="Manipulate FASTA/Q, GFF3, EMBL, GBK files with API for developers"
HOMEPAGE="https://github.com/sanger-pathogens/Fastaq"
EGIT_REPO_URI="https://github.com/sanger-pathogens/Fastaq.git"
^ permalink raw reply related [flat|nested] 8+ messages in thread
* [gentoo-commits] proj/sci:master commit in: sci-biology/Fastaq/
@ 2016-04-10 13:20 Martin Mokrejs
0 siblings, 0 replies; 8+ messages in thread
From: Martin Mokrejs @ 2016-04-10 13:20 UTC (permalink / raw
To: gentoo-commits
commit: ec37fad877f9e8a8d529a968629aaba44cb0e774
Author: Martin Mokrejš <mmokrejs <AT> fold <DOT> natur <DOT> cuni <DOT> cz>
AuthorDate: Sun Apr 10 13:17:21 2016 +0000
Commit: Martin Mokrejs <mmokrejs <AT> fold <DOT> natur <DOT> cuni <DOT> cz>
CommitDate: Sun Apr 10 13:17:21 2016 +0000
URL: https://gitweb.gentoo.org/proj/sci.git/commit/?id=ec37fad8
sci-biology/Fastaq: new package
Package-Manager: portage-2.2.28
sci-biology/Fastaq/Fastaq-9999.ebuild | 21 +++++++++++++++++++++
sci-biology/Fastaq/metadata.xml | 12 ++++++++++++
2 files changed, 33 insertions(+)
diff --git a/sci-biology/Fastaq/Fastaq-9999.ebuild b/sci-biology/Fastaq/Fastaq-9999.ebuild
new file mode 100644
index 0000000..9acd60e
--- /dev/null
+++ b/sci-biology/Fastaq/Fastaq-9999.ebuild
@@ -0,0 +1,21 @@
+# Copyright 1999-2016 Gentoo Foundation
+# Distributed under the terms of the GNU General Public License v2
+# $Id$
+
+EAPI=6
+
+PYTHON_COMPAT=( python3_3 python3_4 )
+
+inherit distutils-r1 git-r3
+
+DESCRIPTION="Python3 script to manipulate FASTA/Q files plus API for developers"
+HOMEPAGE="https://github.com/sanger-pathogens/Fastaq"
+EGIT_REPO_URI="https://github.com/sanger-pathogens/Fastaq.git"
+
+LICENSE="GPL-3"
+SLOT="0"
+KEYWORDS=""
+IUSE=""
+
+DEPEND=""
+RDEPEND="${DEPEND}"
diff --git a/sci-biology/Fastaq/metadata.xml b/sci-biology/Fastaq/metadata.xml
new file mode 100644
index 0000000..f68a1b6
--- /dev/null
+++ b/sci-biology/Fastaq/metadata.xml
@@ -0,0 +1,12 @@
+<?xml version="1.0" encoding="UTF-8"?>
+<!DOCTYPE pkgmetadata SYSTEM "http://www.gentoo.org/dtd/metadata.dtd">
+<pkgmetadata>
+ <maintainer type="person">
+ <email>mmokrejs@fold.natur.cuni.cz</email>
+ <name>Martin Mokrejs</name>
+ </maintainer>
+ <maintainer type="project">
+ <email>sci-biology@gentoo.org</email>
+ <name>Gentoo Biology Project</name>
+ </maintainer>
+</pkgmetadata>
^ permalink raw reply related [flat|nested] 8+ messages in thread
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2023-01-14 11:51 Horea Christian
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